Sequence
atgc intronic sequence ATGC exonic sequencegtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g30020.1 (Oryza sativa), 3'ss of exon 5
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
|| | || | | || | | | | || || || | | | ||| | | || | ||||||| | || || || |||||||| || ||||| | || |||||||||||||| || || | ||||| || ||||||||||||||||||||||| |||
-----------------------gtatgctattgatacccttattatctttagagatatcactcaatca---tgtatataacacgttaaaaagggcgtatattgtacagGCTGCGTACTTCGCTTTGCCTGCAGTTCAAGCCTCATCATATTGCAGCAGGTGCTATCTTTTTGGCTGCTAAATTTCTCAAAGTGAAGCTTCCATCTGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AC233979.1_FGT009 (Zea mays), 3'ss of exon 4
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
| | | | | ||||| | |||| ||||| || ||| | | | || ||| || | || |||| || | |||||| | || ||||| |||||||||||||| || |||| ||||| || ||||| || ||||| ||||| |||||||||||||| ||||||||||| |||
-------------gtatgctaaaattactcttcct---------cattacaaatagtaa----tccacaaacatccctatttact-acgc-cttaaaaggggtgtacagGCTCCGCACTTCACTTTGCCTGCAATTTAAACCGCACCATATTGCGGCTGGTGCAATCTTCCTCGCTGCGAAGTTTCTCAAAGTCAAGCTTCCATCAGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G308570_T02 (Zea mays), 3'ss of exon 13
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
| | | | | ||||| | || | ||||| || ||| | | | | ||| | || || |||| || |||||||| | || ||||| |||||||||||||| || |||| ||||| || || || || ||||| ||||| |||||||| ||||| ||||||||||| |||
-------------gtatgctaaaattactcttcat---------cactgcaaatagtaa----tccacaaacatgcctacttact-atac-cttaaaaggggtgtgcagGCTCCGCACTTCACTTTGCCTGCAATTTAAACCGCACCATATTGCGGCTGGCGCAATCTTCCTGGCTGCGAAGTTTCTTAAAGTCAAGCTTCCATCAGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G115670_T01 (Zea mays), 3'ss of exon 4
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
| | | || | ||| | | | ||| |||| | || | | | | ||| || |||| | | | || | | | ||| ||| | || || || ||||||||||| |||| | || |||||||||||||| || || | ||||| || ||||||||||||||||||||||| |||
-------------gtatgctagtgctaccctt-------actgtcgtttgaaattgcagttcacagt-tgtgtatctactacactta-atattgtgcactg---tacagACTGCGTACTTCGCTTTGCCTGCAATTCGAGCCTCATCATATTGCAGCAGGTGCTATCTTTTTGGCTGCTAAATTTCTCAAAGTGAAGCTTCCATCTGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 4
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
|||||||| | ||| ||| ||||| || | |||| | | | || | || | || ||||||||||||||| ||||| ||||||||||||||| |||||||||||||||||||| | || ||||| ||||||||||||||||||||||||||||| | ||||||||||||||||| |||
gtatgatttggttgccatttg------------tttga--atttaacttcattgaatttatttt----ttttaaatatatttgttcacacactggaaagtggctttcagGCTGAGGACATCGCTCTGCCTGCAATTTAAGCCACATCATATTGCGGCAGGTGCCATTTTCCTTGCTGCCAAGTTCTTGAAAGTGAAGCTTCCATCAGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G02860.1 (Glycine max), 3'ss of exon 5
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaa---gcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
| | | || || | | || || || || | | | | || |||||||||||||| | ||||| ||||||||||||||| |||||||||||||||||||| | || ||||| ||||||||||||||||||||||||||||| | ||||||||||||||||| |||
---------------------gtatgatttggttgcaatttgtttgaatttaactgtgtcgatttatttttaaaatatatttgatcacacactggaaaaaagtggctttcagGCTGAGGACATCGCTCTGCCTGCAATTTAAGCCACATCATATTGCGGCAGGTGCCATTTTCCTTGCTGCCAAGTTCTTGAAAGTGAAGCTTCCATCAGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G02880.1 (Glycine max), 3'ss of exon 4
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactgga---aagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
||| | | || | ||| | || || || || || | | | | || |||||||||||| ||| ||||| ||||||||||||||| |||||||||||||||||||| | || ||||| ||||||||||||||||||||||||||||| | ||||||||||||||||| |||
-------------------gtatgatt-tggttgcaatttgtttgaatttaactg---tcgatttatttttaaaatatatttgatcacacactggaaaaaagtggctttcagGCTGAGGACATCGCTCTGCCTGCAATTTAAGCCACATCATATTGCGGCAGGTGCCATTTTCCTTGCTGCCAAGTTCTTGAAAGTGAAGCTTCCATCAGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G19600.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
| || | || |||| || | || | | ||| ||| || || ||||||||| ||| || |||| |||||||| ||| |||| ||||||||||||||||||||||| |||||||||| || || || ||||| |||||||| ||||| || |||||||| | ||||| |||
-------------gtacgttaaaagtctgtttccttgaaagcttca----gatagatctatctgtcttgtattttcttcttcat----acaatgaaaagatgcttgcagTCTGCGGACGTCACTCTGCCTGCAATTTAAGCCTCACCACATTGCGGCGGGAGCAATTTTTCTTGCTGCGAAGTTCCTTAAAGTGAAATTACCATCAGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G45190.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
| | || | || | | ||||| | ||| ||| | | ||| || || |||||| ||| || |||| ||||||||| || ||||||| |||||||||||||||||||| | || ||||| || ||||| || || ||||| |||||||| || ||||||||| | ||||| |||
-----------gtacgttcaagaactatttccttctaaagcttccaat---aat--tctatgtgccttgtattttcgtcttcat----acaatgaaaagtggcttgcagTCTACGGACATCTCTCTGCCTGCAATTTAAGCCTCATCATATTGCGGCTGGTGCAATATTTCTTGCGGCCAAGTTCCTTAAAGTGAAGTTACCATCAGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S86_187V6.1 (Physcomitrella patens), 3'ss of exon 5
gtatgattaagatgct-ttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
||||||| ||| | || || || |||| ||| || || | | | || || | | || | | ||| || | || ||||| ||||||||||||||||| ||||||| || || || || || ||||| ||||| ||||||||||||||||| || || |||
-------caagatgccacttttagagatcagcagattaat-gttc--tttgtgctgaaaactgtgaccactgtagtcggaaaggctaatgtaagggtgattattgtccagACTTCGCACGTCACTTTGCCTGCAATTTAAGCCTCACCACATCGCTGCGGGAGCTATCTTCCTCGCTGCTAAGTTTCTCAAAGTGAATCTGCCGAAGGAG
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ37217 (Selaginella moellendorffii), 3'ss of exon 4
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttc--actcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
||| | | | | | | || | | || | || | || | ||| || |||| | | | | || ||||| | | |||||||| | ||||| ||||||||||| || ||||| ||||||| || || |||||||||||||| ||||| |||||||| || |||||||| || |||
gtaagctctcg-cacaccagtaggaacttcagtctcgactggagtgttggagtccgtgttgtttcatcactttgatgagatgggaatgaagcagtggaagg-gatgtgcagGCTACGCACATCGCTCTGCCTGCAGTTCAAGCCACACCACATCGCCGCCGGTGCCATTTTCCTGGCTGCAAAGTTTCTTAAGGTGAAGCTGCCGATCGAT
upper sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ27727 (Selaginella moellendorffii), 3'ss of exon 4
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttc--actcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
||| | | | | | | || | | || | || | || | ||| || |||| | | | | || ||||| | | |||||||| | ||||| ||||||||||| || ||||| ||||||| || || |||||||||||||| ||||| |||||||| || |||||||| || |||
gtaagctctcg-cacaccagtaggaacttcagtctcgactggagtgttggagtccgtgttgtttcatcactttgatgagatgggaatgaagcagtggaagg-gatgtgcagGCTACGCACATCGCTCTGCCTGCAGTTCAAGCCGCACCACATCGCCGCTGGTGCCATTTTCCTGGCTGCAAAGTTTCTTAAGGTGAAGCTGCCGATCGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
cactcac putative branch site (score: 2)
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgattaagatgctttttcatgtctctcttttttgatagttccatttcaaatggtctctcttcctctctttctcttcttcactcacacactggaaagcggcttgcagGCTGAGGACATCACTCTGCCTGCAATTTAAGCCCGACCACATTGCAGCAGGTGCCATTTTCCTTGCTGCCAAGTTTCTCAAAGTGAAGCTTCCATCGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC